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BioC experimental data: CHECK report for ind1KG on moscato2

This page was generated on 2016-04-16 19:26:14 -0700 (Sat, 16 Apr 2016).

Package 144/290HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ind1KG 0.9.0
VJ Carey
Snapshot Date: 2016-04-16 07:15:21 -0700 (Sat, 16 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/ind1KG
Last Changed Rev: 3462 / Revision: 3727
Last Changed Date: 2015-10-13 13:20:35 -0700 (Tue, 13 Oct 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK 

Summary

Package: ind1KG
Version: 0.9.0
Command: rm -rf ind1KG.buildbin-libdir ind1KG.Rcheck && mkdir ind1KG.buildbin-libdir ind1KG.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ind1KG.buildbin-libdir ind1KG_0.9.0.tar.gz >ind1KG.Rcheck\00install.out 2>&1 && cp ind1KG.Rcheck\00install.out ind1KG-install.out && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=ind1KG.buildbin-libdir --install="check:ind1KG-install.out" --force-multiarch --no-vignettes --timings ind1KG_0.9.0.tar.gz
StartedAt: 2016-04-16 12:18:39 -0700 (Sat, 16 Apr 2016)
EndedAt: 2016-04-16 12:21:51 -0700 (Sat, 16 Apr 2016)
EllapsedTime: 192.1 seconds
RetCode: 0
Status:  OK  
CheckDir: ind1KG.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   rm -rf ind1KG.buildbin-libdir ind1KG.Rcheck && mkdir ind1KG.buildbin-libdir ind1KG.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ind1KG.buildbin-libdir ind1KG_0.9.0.tar.gz >ind1KG.Rcheck\00install.out 2>&1 && cp ind1KG.Rcheck\00install.out ind1KG-install.out  && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=ind1KG.buildbin-libdir --install="check:ind1KG-install.out" --force-multiarch --no-vignettes --timings ind1KG_0.9.0.tar.gz
###
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* using log directory 'E:/biocbld/bbs-3.3-data-experiment/meat/ind1KG.Rcheck'
* using R version 3.3.0 beta (2016-04-10 r70462)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ind1KG/DESCRIPTION' ... OK
* this is package 'ind1KG' version '0.9.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'ind1KG' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 181.4Mb
  sub-directories of 1Mb or more:
    data     149.8Mb
    pileups   30.5Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [18s] OK
Examples with CPU or elapsed time > 5s
      user system elapsed
n240 10.62   0.23   10.86
** running examples for arch 'x64' ... [17s] OK
Examples with CPU or elapsed time > 5s
     user system elapsed
n240 9.92   0.08      10
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  'E:/biocbld/bbs-3.3-data-experiment/meat/ind1KG.Rcheck/00check.log'
for details.


ind1KG.Rcheck/00install.out:


install for i386

* installing *source* package 'ind1KG' ...
** data
** inst
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'ind1KG' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ind1KG' as ind1KG_0.9.0.zip
* DONE (ind1KG)

ind1KG.Rcheck/examples_i386/ind1KG-Ex.timings:

nameusersystemelapsed
c6snp3.440.063.50
gw6c6.snp2400.140.020.20
n24010.62 0.2310.86
oregdf0.020.000.02
pup240_500k2.600.082.68
pup240_disc0.080.000.08
rsgdf0.010.000.01
yri240_60.440.000.44

ind1KG.Rcheck/examples_x64/ind1KG-Ex.timings:

nameusersystemelapsed
c6snp3.530.053.57
gw6c6.snp2400.140.000.17
n240 9.92 0.0810.00
oregdf000
pup240_500k2.170.062.23
pup240_disc0.060.000.06
rsgdf0.010.000.02
yri240_60.330.010.34